PXD022830

PXD022830 is an original dataset announced via ProteomeXchange.

Title	Differences in gene expression between colony and aggregate biofilms of Clostridioides difficile revealed by proteomic profiling
Description	The protein inventory of the anaerobic pathogen Clostridioides difficile grown in colony or aggregate biofilms was investigated in a comprehensive LC-MS/MS approach. C. difficile has a versatile metabolism and is perfectly equipped to survive and persist inside the mammalian intestine. However, knowledge on how C. difficile exactly resides inside the intestine is still scare. Aggregate or biofilms attached to the epithelium are discussed as possible growth forms and have become a focus in research. However, recent data suggest that the choice of the model strain, timepoint of analysis and the biofilm model significantly impact the outcome of biofilm experiments leading to contradictory results. To address some of these issues, a comprehensive proteomics approach was applied to investigate the metabolism of C. difficile strain 630erm grown in colony or aggregate biofilms. Besides verification of recent findings, a comprehensive overview on the differential expression profile of C. difficile’s cell surface proteins as well as its energy and stress metabolism during the two different forms of biofilm growth could be provided. Additionally, regulatory circuits that were activated in the two different biofilm models were analysed whereby RpoN was determined to be an important regulator of aggregate biofilm formation in C. difficile.
HostingRepository	PRIDE
AnnounceDate	2021-07-12
AnnouncementXML	Submission_2021-07-11_23:27:21.079.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Daniela Zuehlke
SpeciesList	scientific name: Clostridioides difficile 630; NCBI TaxID: 272563;
ModificationList	monohydroxylated residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2020-12-01 01:20:26	ID requested
⏵ 1	2021-07-11 23:27:21	announced

Brauer M, Lassek C, Hinze C, Hoyer J, Becher D, Jahn D, Sievers S, Riedel K, . Front Microbiol, 12():682111(2021) [pubmed]

submitter keyword: Biofilm, Clostridioides difficile, Cell surface antigens, RpoN signaling, Persistence, LC-MS/MS

Katharina Riedel
contact affiliation	University of Greifswald, Institute of Microbiology, Department of Microbial Physiology and Molecular Biology
contact email	riedela@uni-greifswald.de
lab head
Daniela Zuehlke
contact affiliation	University of Greifswald, Institute of Microbiology
contact email	zuehlke@uni-greifswald.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2021/07/PXD022830

PRIDE project URI

• PRIDE
  1. PXD022830
     1. Label: PRIDE project
     2. Name: Differences in gene expression between colony and aggregate biofilms of Clostridioides difficile revealed by proteomic profiling